A new ensemble coevolution system for detecting HIV-1 protein coevolution

Authors: Eusebio M, Khouri R, Li G, Piampongsant S, Pineda-Peña AC, Ramon J, Theys K, Vandamme AM, Verheyen J
Publication Year: 2015
Journal: Biology Direct
Link: https://biologydirect.biomedcentral.com/articles/10.1186/s13062-014-0031-8

A key challenge in the field of HIV-1 protein evolution is the identification of coevolving amino acids at the molecular level. In the past decades, many sequence-based methods have been designed to detect position-specific coevolution within and between different proteins. However, an ensemble coevolution system that integrates different methods to improve the detection of HIV-1 […]
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An integrated map of HIV genome-wide variation from a population perspective

Authors: Faria NR, Khouri R, Lemey P, Li G, Piampongsant S, Pineda-Peña AC, Theys K, Vandamme AM, Voet A
Publication Year: 2015
Journal: Retrovirology
Link: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4358901/

Background: The HIV pandemic is characterized by extensive genetic variability, which has challenged the development of HIV drugs and vaccines. Although HIV genomes have been classified into different types, groups, subtypes and recombinants, a comprehensive study that maps HIV genome-wide diversity at the population level is still lacking to date. This study aims to characterize […]
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Trends and predictors of transmitted drug resistance (TDR) and clusters with TDR in a local Belgian HIV-1 epidemic

Authors: Albert J, Balotta C, Boucher C, De Munter P, Derdelinckx I, Ferreira F, Gomez-Lopez A, Khouri R, Kostrikis LG, Kücherer C, Li G, Littsola K, Nielsen C, Paredes R, Pineda-Peña AC, Schrooten Y, Stanojevic M, Trovão NS, Van Laethem K, Van Ranst M, Van Wijngaerden E, Vandamme AM, Vercauteren J, Vinken L, Wensing A
Publication Year: 2014
Journal: PLoS One
Link: http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0101738

We aimed to study epidemic trends and predictors for transmitted drug resistance (TDR) in our region, its clinical impact and its association with transmission clusters. We included 778 patients from the AIDS Reference Center in Leuven (Belgium) diagnosed from 1998 to 2012. Resistance testing was performed using population-based sequencing and TDR was estimated using the WHO-2009 surveillance list.
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CD80+ and CD86+ B cells as biomarkers and possible therapeutic targets in HTLV-1 associated myelopathy/tropical spastic paraparesis and multiple sclerosis

Authors: Alvarez C, Brassat D, Decanine D, Galvão-Castro B, Gotuzzo E, Khouri R, Kruschewsky R, Liblau R, López G, Menezes SM, Schnitman SV, Talledo M, Vandamme AM, Weyenbergh JV
Publication Year: 2014
Journal: Journal of Neuroinflammation
Link: http://www.jneuroinflammation.com/content/11/1/18

Human T-cell lymphotropic virus (HTLV-1) is the causative agent of the incapacitating, neuroinflammatory disease HTLV-1-associated myelopathy/tropical spastic paraparesis (HAM/TSP). Currently, there are no disease-modifying therapies with long-term clinical benefits or validated biomarkers for clinical follow-up in HAM/TSP.
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A new ensemble coevolution system for detecting HIV-1 protein coevolution

An integrated map of HIV genome-wide variation from a population perspective

Trends and predictors of transmitted drug resistance (TDR) and clusters with TDR in a local Belgian HIV-1 epidemic

CD80+ and CD86+ B cells as biomarkers and possible therapeutic targets in HTLV-1 associated myelopathy/tropical spastic paraparesis and multiple sclerosis

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